Melanoma HLA peptidome immunogenicity
downstream-application
HLA class I peptidomes of four melanoma cell lines, extracted from isolated HLA, separated by two-dimensional HPLC and sequenced by MALDI post-source-decay MS. Spectra were interpreted twice over, by database-dependent Mascot search and by database-independent de novo sequencing in Sequit!, with synthetic peptides used to confirm assignments and to measure immunogenicity. Overlap between the four peptidomes was small, indicating highly individual HLA peptidomes, yet they were broadly immunogenic both in the patients the lines came from and in unrelated patients, and that cross-patient immunogenicity was only exceptionally attributable to individual peptides. Most epitopes came from low to medium abundance proteins in sensitive processes such as cell cycle control, DNA replication and tumour suppression.
| Kind | downstream-application |
| Deep learning | no |
| Acquisition | DDA |
| Application area | immunopeptidomics |
Papers
- High Immunogenicity of the Human Leukocyte Antigen Peptidomes of Melanoma Tumor Cells (2012, Journal of Biological Chemistry, peer-reviewed)